Startseite The crystal structure of N-(acridin-9-yl)-4-chloro-N-(4-chloro-butanoyl) butanamide, C21H20Cl2N2O2
Artikel Open Access

The crystal structure of N-(acridin-9-yl)-4-chloro-N-(4-chloro-butanoyl) butanamide, C21H20Cl2N2O2

  • Dan Zhou ORCID logo , Chen Yang Jing ORCID logo , Hong-ji Li , Xinyi Zhang , Pei Rong Zhao und Wen Li EMAIL logo
Veröffentlicht/Copyright: 22. April 2024

Abstract

C21H20Cl2N2O2, orthorhombic, P21 (no. 4), a = 8.3667(14) Å, b = 15.444(3) Å, c = 15.105(2) Å, V = 1951.9(6) Å3, Z = 4, Rgt (F) = 0.0481, wRref (F 2) = 0.1574, T = 292 K.

CCDC no.: 2325358

The molecular structure is shown in the figure. Table 1 contains crystallographic data and Table 2 contains the list of the atoms including atomic coordinates and displacement parameters.

Table 1:

Data collection and handling.

Crystal: Colorless block
Size: 0.12 × 0.10 × 0.08 mm
Wavelength:

μ:
Mo Kα radiation (0.71073 Å)

0.35 mm−1
Diffractometer, scan mode:

θ max, completeness:
Bruker D8 quest, Ф and ω

25.1°, >99 %
N(hkl)measured, N(hkl)unique, R int: 23412, 3413, 0.066
Criterion for I obs, N(hkl)gt: I obs > 2σ(I obs), 2328
N(param)refined: 244
Programs: SHELX [1, 2]
Table 2:

Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2).

Atom x y z U iso*/U eq
C1 0.6711 (6) 0.4913 (4) 0.3678 (4) 0.0442 (14)
C2 0.7409 (6) 0.4072 (5) 0.3575 (4) 0.0526 (16)
H2 0.7835 0.3911 0.3030 0.063*
C3 0.7453 (9) 0.3515 (5) 0.4257 (5) 0.068 (2)
H3 0.7923 0.2974 0.4181 0.082*
C4 0.6797 (9) 0.3736 (4) 0.5090 (5) 0.0616 (17)
H4 0.6813 0.3335 0.5549 0.074*
C5 0.6148 (7) 0.4528 (4) 0.5226 (4) 0.0491 (14)
H5 0.5735 0.4670 0.5779 0.059*
C6 0.6095 (6) 0.5142 (4) 0.4530 (3) 0.0386 (13)
C7 0.5448 (6) 0.5973 (4) 0.4615 (3) 0.0376 (12)
C8 0.5409 (6) 0.6541 (4) 0.3907 (3) 0.0377 (13)
C9 0.6023 (6) 0.6239 (4) 0.3081 (4) 0.0423 (14)
C10 0.5968 (8) 0.6809 (5) 0.2346 (4) 0.0618 (18)
H10 0.6344 0.6620 0.1800 0.074*
C11 0.5390 (9) 0.7606 (5) 0.2422 (5) 0.0691 (18)
H11 0.5367 0.7967 0.1929 0.083*
C12 0.4809 (7) 0.7913 (5) 0.3247 (4) 0.0592 (17)
H12 0.4431 0.8478 0.3293 0.071*
C13 0.4798 (7) 0.7399 (4) 0.3962 (4) 0.0495 (15)
H13 0.4390 0.7603 0.4495 0.059*
C14 0.6006 (8) 0.6511 (4) 0.6079 (4) 0.0449 (14)
C15 0.5592 (8) 0.6531 (4) 0.7040 (4) 0.0545 (16)
H15A 0.5076 0.5989 0.7194 0.065*
H15B 0.4826 0.6992 0.7140 0.065*
C16 0.6994 (8) 0.6665 (5) 0.7648 (4) 0.069 (2)
H16A 0.7433 0.7235 0.7532 0.083*
H16B 0.6600 0.6665 0.8252 0.083*
C17 0.8327 (9) 0.6021 (6) 0.7589 (5) 0.089 (3)
H17A 0.9078 0.6127 0.8066 0.106*
H17B 0.8889 0.6104 0.7033 0.106*
C18 0.3174 (6) 0.6122 (4) 0.5648 (4) 0.0409 (13)
C19 0.2226 (7) 0.5734 (4) 0.4906 (4) 0.0495 (16)
H19A 0.2826 0.5259 0.4649 0.059*
H19B 0.2070 0.6167 0.4449 0.059*
C20 0.0600 (7) 0.5401 (4) 0.5213 (5) 0.0566 (16)
H20A 0.0049 0.5864 0.5520 0.068*
H20B −0.0031 0.5252 0.4696 0.068*
C21 0.0679 (8) 0.4628 (4) 0.5811 (5) 0.0649 (18)
H21A −0.0387 0.4491 0.6022 0.078*
H21B 0.1337 0.4764 0.6321 0.078*
Cl1 0.7649 (3) 0.49210 (16) 0.76526 (16) 0.1020 (8)
Cl2 0.1495 (3) 0.37042 (12) 0.52476 (13) 0.0849 (7)
N1 0.6671 (5) 0.5444 (3) 0.2977 (3) 0.0474 (12)
N2 0.4833 (5) 0.6220 (3) 0.5474 (3) 0.0393 (10)
O1 0.7312 (5) 0.6686 (3) 0.5794 (3) 0.0584 (12)
O2 0.2596 (5) 0.6349 (3) 0.6340 (3) 0.0555 (11)

1 Source of materials

The 9-aminoacridine (0.97 g, 5 mmol) and triethylamine (2.75 ml, 25 mmol) was initially added to 15 mL tetrahydrofuran. Subsequently, the 4-chloro-butyryl chloride (3.5 ml, 25 mmol) was slowly added to the reaction mixture and continued stirring for 120 min at 0 °C. The solvent was removed under reduced pressure and the solid product was dissolved in ethyl acetate. The solids were removed by vacuum filtration, and the filtrate was washed with 100 ml sodium carbonate solution (10 %). The ethyl acetate was removed under reduced pressure to give a solid-liquid mixture. The pure product was obtained by washing the above mixture with ethanol. The solid product was recrystallized from 10 mL of anhydrous diethyl ether. Colorless block crystals were obtained after one day.

2 Experimental details

The structure was solved by Direct Methods and refined with the SHELX [1, 2] crystallographic software package. Hydrogen atoms were placed in their geometrically idealized positions and constrained to ride on their parent atoms. The crystal structure was visualized by OLEX2 software package.

3 Comment

The monosubstituted derivatives of 9-aminacridine have good activity as LSD1 inhibitors [3]. In order to investigate the inhibitory activity of 9-aminoacridine bissubstituted derivatives on LSD1, we synthesized a series of compounds, one of which is the title compound. Due to the imide isomeric form of 9-aminoacridine, the location of acylation of the title compound cannot be determined by Nuclear Magnetic Resonance [4, 5]. Single crystal diffraction is an effective and intuitive method for determining the structure of compounds [6], [7], [8].

In the structure of acridine dibutyrylation products, all geometric parameters of the title compound are in the normal range. The asymmetric unit contains 4 molecules of title compound. The dihedral angle between the plane of acridine skeleton and the plane of C14–N2–C18 was determined as 83.5°, which is nearly perpendicular. The dihedral angle formed by the plane of N2–C14–C15 and the plane of N2–C18–C19 is 18.2°. Crystal structures of many aminoacridine compounds have been reported [911]. N-(acridin-9-yl)-2-(4-methylpiperidin-1-yl) acetamide (CCDC no. 2325357) has the similar chemical structure to the title compound [10]. The structural difference between the two compounds is that the title compound is a diacylation product, while the other is a monoacetylation product. In addition, the difference in crystal structure between the two compounds lies in the bond length and bond angle of the C–N bond formed by the amino group on the acridine moieties. The C–N bond lengths of the title compound are 1.448 Å(C7–N2) and 1.415 Å (N2–C14), and that of N-(acridin-9-yl)-2-(4-methylpiperidin-1-yl) acetamide are 1.420 Å (C7–N2) and 1.346 Å (N2–C14). The bond angles of the title compound and N-(acridin-9-yl)-2-(4-methylpiperidin-1-yl) acetamide are 114.6° (C7–N2–C14) and 124.4° (C7–N2–C14), respectively.


Corresponding author: Wen Li, School of Pharmaceutical Sciences, Zhengzhou University, Zhengzhou 450001, People’s Republic of China; and Henan Province Collaborative Innovation Center of New Drug Research and Safety Evaluation, Ministry of Education, Key Laboratory of Advanced Drug Preparation Technologies and Key Laboratory of Henan Province for Drug Quality and Evaluation, Zhengzhou, People’s Republic of China, E-mail:

Acknowledgments

The Analysis and Testing Center of Zhengzhou University is acknowledged for the single crystal X-ray diffraction facility.

  1. Author contributions: The synthesis of compounds and crystal preparation were completed by Dan Zhou, while the data analysis, writing and revision of the paper were completed by Chen–Yang Jing, Dan Zhou and Yu–Qian Kan; supervision, Wen Li. All authors have read and agreed to the published version of the manuscript.

  2. Competing interests: The authors declare no conflicts of interest regarding this article.

  3. Research funding: This work was supported by the Key Technologies R & D Program of Henan Province of China (No. 222102310279 for WL) and Sinopharm Scholarship of Zhengzhou University (For XYZ).

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Received: 2024-02-26
Accepted: 2024-03-27
Published Online: 2024-04-22
Published in Print: 2024-08-27

© 2024 the author(s), published by De Gruyter, Berlin/Boston

This work is licensed under the Creative Commons Attribution 4.0 International License.

Artikel in diesem Heft

  1. Frontmatter
  2. New Crystal Structures
  3. The crystal structure of hexaquazinc(II) poly[hexakis(μ2-4-methylbenzenesulfinato-κ2O:O′) dizinc(II)]
  4. The crystal structure of poly[((2-(4,5-dihydro-1H-pyrazol-4-yl)-1,3-dioxoisoindoline-5-carbonyl)oxy)(1-(dimethylamino)ethoxy)zinc[II]], C16H14ZnN4O5
  5. Crystal structure of bis[(triaqua-4-iodopyridine-2,6-dicarboxylato-κ 3 N,O,O )cobalt(II)] trihydrate, C14H22N2O17I2Co2
  6. Crystal structure of bis(methanol-κO)-bis(nitrato-kO)-bis(1-((2-(2-chloro-4-(4-chlorophenoxy)phenyl)-4-methyl-1,3-dioxolan-2-yl)methyl)-1H-1,2,4-triazole-κN)cadmium(II), C40H42O14N8Cl4Cd
  7. Crystal structure of poly[μ2-dichlorido-(μ2-1-[(2,4-dimethyl-1H-triazole-1-yl)methyl]-1H-benzotriazole-κ2N:N′)cadmium(II)], C11H12CdN6Cl2
  8. The crystal structure of (3aS, 4R, 7S, 7aR)-hexahydro-4, 7-methano-1H-isoindole-1, 3-(2H)-dione, C9H11NO2
  9. The crystal structure of N-(acridin-9-yl)-4-chloro-N-(4-chloro-butanoyl) butanamide, C21H20Cl2N2O2
  10. Crystal structure of 3,3′-dimethoxy-4,4′-oxy-di-benzaldehyde, C16H14O5
  11. The crystal structure of tetrakis(μ 2-2-amino-3,5-dibromobenzoate-κ 2 O:O′)-octakis(n-butyl-κ 1 C)-bis(μ 3-oxo)tetratin(II), C60H92Br8N4O10Sn4
  12. Crystal structure of methyl-1-(naphthalen-1-yl)-2,3,4,9-tetrahydro-1H-pyrido[3,4-b] indole-3-carboxylate, C23H20N2O2
  13. Crystal structure of tetrapropylammonium bicarbonate–1-(diaminomethylene)thiourea(1/1)
  14. Crystal structure of 6,6′-((1E,1′E)-((2-phenylpyrimidine-4,6-diyl)bis(hydrazin-2-yl-1-ylidene))bis(methaneylylidene))bis(2-methoxyphenol)monohydrate, C26H26N6O5
  15. Crystal structure of bis(N,N,N-trimethylbutanaminium) tetrathiotungstate(VI), (BuMe3N)2[WS4]
  16. The crystal structure of 2,3,9-triphenyl-9-(2-phenylbenzofuran-3-yl)-9H-9λ 5-benzo[4,5][1,2]oxaphospholo[2,3-b][1,2,5]oxadiphosphole 2-oxide, C40H28O4P2
  17. Crystal structure of 1–methyl-3-propyl-4-nitro-1H-pyrazole-5-carboxylic acid, C8H11N3O4
  18. Crystal structure of N-(benzo[d]thiazol-2-yl)-2-chloroacetamide, C9H7ClN2OS
  19. The crystal structure of N-benzyl-2-chloro-N-(p-tolyl) acetamide, C16H16ClNO
  20. Crystal structure of 3,4-dimethoxybenzyl 2-(6-methoxynaphthalen-2-yl)propanoate, C23H24O5
  21. Crystal structure of 2,5-bis(2,5-dimethoxybenzyl)-3,6-dimethyl-2,5-dihydropyrrolo[3,4-c]pyrrole-1,4-dione, C26H28N2O6
  22. Crystal structure of poly[(μ3-5-bromoisophthalato-κ4 O,O′ :O″,O‴)-(μ2-1,2-bis(1,2,4-triazole-1-ylmethyl)benzene-κ2 N:N′)cobalt(II)], C20H15BrCoN6O4
  23. The crystal structure of bis(2-(piperidin-1-ium-4-yl)-1Hbenzo[d]imidazol-3-ium) dihydrogen decavanadate, C24H36N6O28V10
  24. Crystal structure of diaqua-bis(1-(3-carboxyphenyl)-5-methyl-4-oxo-1,4-dihydropyridazine3-carboxylato-O,O′)-cobalt(ii)dihydrate, C26H36N4O14Co
  25. Crystal structure of poly[(μ2-5-bromoisophthalato-κ4 O,O :O ,O )-(μ2-1,4-bis(2-methylimidazol-1-ylmethyl)benzene-N:N)cadmium(II)], C24H21BrCdN4O4
  26. The crystal structure of dimethyl 8-(3-methoxy-2-(methoxycarbonyl)-3-oxoprop-1-en-1-yl)-4-methyl-1-(p-tolyl)-1,3a,4,8b-tetrahydro-3H-furo[3,4-b]indole-3,3-dicarboxylate. C28H29NO9
  27. Crystal structure of (3R)-1-(3,5-dimethoxyphenyl)-2,3,4,9-tetrahydro-1H-pyrido[3,4-b]indole-3-carboxylate chloride, C21H23ClN2O4
  28. Synthesis and crystal structure of 3-(4,5-dihydroisoxazol-3-yl)-2-methyl-4-(methylsulfonyl)benzoic acid, C12H13NO5S
  29. The crystal structure of hexaaquamagnesium(II) bis-3-(1,2,3,4-tetrahydrobenzo[4,5]imidazo[1,2-α]pyridin-1-yl)benzoate, C36H42N4O10Mg
  30. Crystal structure of 4-formyl-2-methoxyphenyl 2-acetoxybenzoate, C17H14O6
  31. Crystal structure of poly[octakis(μ-oxido)-tris(μ-1,1′-[[1,1′-biphenyl]-4,4′-diylbis(methylene)]bis(1H-imidazole))-tetrakis(oxido)-tetra-vanadium-dimanganese(II)dihydrate], C30H29MnN6O7V2
  32. Crystal structure of 4,8a-bis(4-chlorophenyl)-1,5,6-tris(4-fluorobenzyl)-1,4,4a,4b,5,6,8a,8b-octahydrocyclobuta[1,2-b:3,4-c′]dipyridine-3,8-dicarbonitrile, C45H33Cl2F3N4
  33. Crystal structure of benzo[d][1,3]dioxol-5-ylmethyl 2-(6-methoxynaphthalen-2-yl)propanoate, C22H20O5
  34. Crystal structure of N-benzoyl-N-phenylhydroxylaminato-dicarbonylrhodium(I), [Rh(BNA)CO2]
  35. The crystal structure of N-(2-((2-methoxynaphthalen-1-yl)ethynyl)phenyl)-4-methylbenzenesulfonamide, C26H21NO3S
  36. The crystal structure of methyl ((4-aminobenzyl)sulfonyl)-d-prolinate, C13H18N2O4S
  37. The crystal structure of dichlorido-(N-isopropyl-N-(pyridin-2-ylmethyl)propan-2-amine-κ 2 N, N′)palladium(II), C12H20N2PdCl2
  38. Crystal structure of poly[(μ 2-5-hydroxyisophthalato-κ4 O,O′:O″,O‴)-(μ 2-1,4-bis(2-methylimidazolyl)-1-butene-N:N′)nickel(II)], C20H20NiN4O5
  39. The crystal structure of {hexakis(1-methyl-1H-imidazole-κ 1 N)cobalt(II)}(μ 2-oxido)-hexaoxido-dimolybdenum(VI)— 1-methyl-1H-imidazole (1/2), C32H48CoMo2N16O7
  40. Synthesis, crystal structure and nonlinear optical property of 1-((propan-2-ylideneamino)oxy)propan-2-yl-4-methylbenzenesulfonate, C13H19O4NS
  41. The crystal structure of N,N-(ethane-1,1-diyl)dibenzamide, C16H16N2O2
  42. Crystal structure of 1-(4-bromophenyl)-3-(diphenylphosphoryl)-3-hydroxypropan-1-one, C21H18BrO3P
  43. The crystal structure of fac-tricarbonyl(bis(3,5-dimethyl-4H-pyrazole)-κ1 N)-((nitrato)-κ1 O)-rhenium(I)— 3,5-dimethyl-4H-pyrazole(1/1), C18H23N7O6Re
  44. The crystal structure of 4′-chloro-griseofulvin: (2S,6′R)-4′,7-dichloro-4,6-dimethoxy-6′-methyl-3H-spiro[benzofuran-2,1′-cyclohexan]-3′-ene-2′,3-dione, C16H14Cl2O5
  45. Crystal structure of tetraethylammonium bicarbonate–1-(diaminomethylene)thiourea(1/1)
  46. Crystal structure of 1-cyclohexyl-4-p-tolyl-1,4-dihydropyridine-3,5-dicarboxylic acid dimethyl ester, C22H27NO4
  47. The crystal structure of catena-poly(μ2-1,4-bis-(1H-imidazol-1-yl)benzene-copper(I)) dichloridocopper(I), {[CuC12H10N4]+[CuCl2]} n
  48. The crystal structure of propane-1-aminium-2-carbamate, C4H10N2O2
  49. Crystal structure of 5,6,3′,4′,5′-pentamethoxy-flavone dihydrate, C20H24O9
  50. Crystal structure of (E)-N-(2-bromophenyl)-4-(4-(3,5-dimethoxystyryl)phenoxy)pyrimidin-2-amine, C26H22BrN3O3
  51. Crystal structure of methyl (3R)-1-(2-bromo-4-fluorophenyl)-2,3,4,9-tetrahydro-1H-pyrido[3,4-b]indole-3-carboxylate hydrochloride hydrate, C19H19BrClFN2O3
  52. The crystal structure of 1-(2-chlorophenyl)-3-(p-tolyl)urea, C14H13ClN2O
  53. The crystal structure of 1-cyclohexyl-3-(p-tolyl)urea, C14H20N2O
  54. Crystal structure of ((benzyl(hydroxy)-amino)(4-chlorophenyl)methyl)-diphenylphosphine oxide, C26H23ClNO2P
  55. The crystal structure of ethyl 3-(1-methyl-1H-indole-2-carbonyl)-2-phenylquinoline-4-carboxylate, C28H22N2O3
  56. The crystal structure of 1,4-bis(1H-imidazol-3-ium-1-yl)benzene dinitrate, C12H12N4 2+·2(NO3 )
  57. Crystal structure of tris(hexafluoroacetylacetonato-κ2O,O′) bis(triphenylphosphine oxide-κ1O)samarium(III), C51H33F18O8P2Sm
  58. Crystal structure of 1-(4-(dimethylamino)phenyl)-2,3-bis(diphenylphosphoryl)propan-1-one, C35H33NO3P2
  59. Crystal structure of diaqua[bis(μ 2-pyridine 2,6-dicarboxylato) bismuth(III) potassium(I)], C14H10BiKN2O10
  60. Crystal structure of (R)-N, N -dimethyl-[1, 1′-binaphthalene]-2, 2′-diamine, C22H20N2
  61. Crystal structure of 1-phenyl-4-(2-furoyl)-3-furyl-1H-pyrazol-5-ol, C18H12N2O4
  62. Crystal structure of bis(14,34-dimethyl[11,21:23,31-terphenyl]-22-yl)diselane, C40H34Se2
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